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- PDB-4m4w: Mechanistic implications for the bacterial primosome assembly of ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 4m4w | ||||||
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Title | Mechanistic implications for the bacterial primosome assembly of the structure of a helicase-helicase loader complex | ||||||
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![]() | REPLICATION / primase / helicase loader / DnaB / DnaG / DnaI / DNA replication | ||||||
Function / homology | ![]() DNA primase DnaG / DNA primase activity / DNA 5'-3' helicase / primosome complex / DNA replication, synthesis of primer / DNA unwinding involved in DNA replication / DNA-directed RNA polymerase complex / DNA helicase activity / Hydrolases; Acting on acid anhydrides; Acting on acid anhydrides to facilitate cellular and subcellular movement / DNA replication ...DNA primase DnaG / DNA primase activity / DNA 5'-3' helicase / primosome complex / DNA replication, synthesis of primer / DNA unwinding involved in DNA replication / DNA-directed RNA polymerase complex / DNA helicase activity / Hydrolases; Acting on acid anhydrides; Acting on acid anhydrides to facilitate cellular and subcellular movement / DNA replication / ATP hydrolysis activity / DNA binding / zinc ion binding / ATP binding / identical protein binding / metal ion binding / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | ![]() ![]() ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Liu, B. / Eliason, W.K. / Steitz, T.A. | ||||||
![]() | ![]() Title: Structure of a helicase-helicase loader complex reveals insights into the mechanism of bacterial primosome assembly. Authors: Liu, B. / Eliason, W.K. / Steitz, T.A. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 759.1 KB | Display | ![]() |
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PDB format | ![]() | 633 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 50699.445 Da / Num. of mol.: 6 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Gene: dnaB / Plasmid: pET21d(+) / Production host: ![]() ![]() #2: Protein | Mass: 16796.490 Da / Num. of mol.: 3 / Fragment: Helicase Binding Domain (UNP residues 455-597) Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Gene: dnaG / Plasmid: pET21d(+) / Production host: ![]() ![]() #3: Protein | Mass: 36991.152 Da / Num. of mol.: 6 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Strain: 168 / Gene: BSU28980, dnaI, ytxA / Plasmid: pET21d(+) / Production host: ![]() ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 4.79 Å3/Da / Density % sol: 74.29 % |
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Crystal grow | Temperature: 290 K / Method: vapor diffusion / pH: 8 Details: 11-13% w/v PEG3350, 0.2 M lithium sulfate, 50 mM TRIS, pH 8.0-8.3, VAPOR DIFFUSION, temperature 290K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Mar 11, 2010 / Details: mirrors |
Radiation | Monochromator: Cryo-Cooled double crystal Si(111) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97918 Å / Relative weight: 1 |
Reflection | Resolution: 6→50 Å / Num. all: 26476 / Num. obs: 26476 / % possible obs: 95.3 % / Observed criterion σ(F): 1 / Observed criterion σ(I): 1 / Redundancy: 3.1 % / Rsym value: 0.175 / Net I/σ(I): 3.7 |
Reflection shell | Resolution: 6→6.21 Å / Redundancy: 2.5 % / Mean I/σ(I) obs: 0.5 / Num. unique all: 2472 / Rsym value: 1 / % possible all: 90.7 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.4 Å / Solvent model: MASK | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 140.281 Å2
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Refinement step | Cycle: LAST / Resolution: 6.1→20 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 6.1→6.242 Å / Total num. of bins used: 20
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